BLASTP 2.2.18 [Mar-02-2008]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 0001.3400.p
         (323 letters)

Database: BlastDatabases/689/689 
           4735 sequences; 1,619,870 total letters

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312740|ref|YP_003776832.1| thymidylate synthetase [Herbasp...   647   0.0  

>gi|300312740|ref|YP_003776832.1| thymidylate synthetase
           [Herbaspirillum seropedicae SmR1]
          Length = 323

 Score =  647 bits (1670), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 304/323 (94%), Positives = 318/323 (98%)

Query: 1   MKQYQDLIQDVLENGSWQDNRTGIRTLSIPGAMMRFDLQKGFPAVTTKRLAFKSVVGELC 60
           MKQYQDLIQDVLENGSWQDNRTGIRTLSIPGAMMRFDLQKGFPAVTTKRLAFKSVVGELC
Sbjct: 1   MKQYQDLIQDVLENGSWQDNRTGIRTLSIPGAMMRFDLQKGFPAVTTKRLAFKSVVGELC 60

Query: 61  GFLRATRSAADFRALGCKVWDQNANENADWLANPFRTGSDDLGPVYGVQWRQWPAYKLID 120
           GFLRATRSAADFRALGCKVWDQNANENADWLANPFR+G+DDLGPVYGVQWRQWPAYKLID
Sbjct: 61  GFLRATRSAADFRALGCKVWDQNANENADWLANPFRSGADDLGPVYGVQWRQWPAYKLID 120

Query: 121 AAQSAQIEAARAKGFALVSTLQDEGVDKVLLYKAVDQLRECLDTIVKNPGSRRILFHGWN 180
           AA + QIEAAR+KGFA+VS+LQDEGV+KVLLYKAVDQLRECLDTIV NPGSRRILFHGWN
Sbjct: 121 AAHTTQIEAARSKGFAIVSSLQDEGVEKVLLYKAVDQLRECLDTIVNNPGSRRILFHGWN 180

Query: 181 CAVLDEIALPACHLLYQFLPNQSTGEISLCLYVRSNDIGLGTPFNLAEGAALLHLVARLT 240
           CAVLDE+ALPACHLLYQFLPNQSTGEISLCLYVRSNDIGLGTPFNLAEGAALLHLVARLT
Sbjct: 181 CAVLDEVALPACHLLYQFLPNQSTGEISLCLYVRSNDIGLGTPFNLAEGAALLHLVARLT 240

Query: 241 GYQPRWFSYFVGDAHIYENHIDMVKEQLTRAPYPLPQLAIAERVPEFAKTGQYAPQWLEL 300
           GY+PRWFSYFVGDAHIYENHIDMVKEQLTRAPYPLPQL IA+RVPEFA+TG+Y PQWLEL
Sbjct: 241 GYKPRWFSYFVGDAHIYENHIDMVKEQLTRAPYPLPQLEIADRVPEFARTGRYEPQWLEL 300

Query: 301 IEPSDFSLLNYQHHAPLTAPMAV 323
           +EPSDFSL+NYQHHAPLTAPMAV
Sbjct: 301 VEPSDFSLVNYQHHAPLTAPMAV 323


  Database: BlastDatabases/689/689
    Posted date:  Apr 10, 2011 12:15 AM
  Number of letters in database: 1,619,870
  Number of sequences in database:  4735
  
Lambda     K      H
   0.322    0.137    0.430 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4735
Number of Hits to DB: 1,018,835
Number of extensions: 40313
Number of successful extensions: 100
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 100
Number of HSP's successfully gapped: 1
Length of query: 323
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 238
Effective length of database: 1,217,395
Effective search space: 289740010
Effective search space used: 289740010
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 131 (55.1 bits)